JMJ14, a JmjC domain protein, is required for RNA silencing and cell-to-cell movement of an RNA silencing signal in Arabidopsis

Genes and Development

Volumn 24, Issue 10, 2010, Pages 986-991

  Searle, Iain R ^a,b   Pontes, Olga ^c   Melnyk, Charles W ^a,b   Smith, Lisa M ^b,d   Baulcombe, David C ^a,b  

^a UNIVERSITY OF CAMBRIDGE   (United Kingdom)

^b SAINSBURY LABORATORY   (United Kingdom)

^c WASHINGTON UNIVERSITY SCHOOL OF MEDICINE   (United States)

^d MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY   (Germany)

Author keywords

Arabidopsis; Chromatin; Histone demethylase; RNA silencing; siRNAs

Indexed keywords

PROTEIN; PROTEIN ARGONAUTE 4; PROTEIN JMJ14; RNA; RNA DIRECTED RNA POLYMERASE; RNA DIRECTED RNA POLYMERASE 2; UNCLASSIFIED DRUG;

ARABIDOPSIS; ARTICLE; CELL INTERACTION; CELL MOTION; GENE SILENCING; NONHUMAN; PLANT GENETICS; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN FUNCTION; TRANSGENE;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; CHROMATIN; DNA METHYLATION; FLOWERS; GENETIC COMPLEMENTATION TEST; JUMONJI DOMAIN-CONTAINING HISTONE DEMETHYLASES; MUTATION; PHOTOPERIOD; RNA INTERFERENCE; SIGNAL TRANSDUCTION;

ARABIDOPSIS;

EID: 77952352352     PISSN: 08909369     EISSN: 15495477     Source Type: Journal    
DOI: 10.1101/gad.579910     Document Type: Article

References (42)

1. Agger K, Cloos PAC, Christensen J, Pasini D, Rose S, Rappsilber J, Issaeva I, Canaani E, Salcini AE, Helin K. 2007. UTX and JMJD3 are histone H3K27 demethylases involved in HOX gene regulation and development. Nature 449: 731-734. (Pubitemid 47552088)
2. Baurle I, Smith LMA, Baulcombe DC, Dean C. 2007. Widespread role for the flowering time regulators FCA and FPA in siRNA-directed chromatin silencing. Science 318: 109-112.
3. Cao X, Jacobsen SE. 2002a. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc Natl Acad Sci 99: 16491-16498.
4. Cao XF, Jacobsen SE. 2002b. Role of the Arabidopsis DRM methyltransferases in de novo DNA methylation and gene silencing. Curr Biol 12: 1138-1144.
5. Chen ZZ, Zang JY, Whetstine J, Hong X, Davrazou F, Kutateladze TG, Simpson M, Mao QL, Pan CH, Dai SD, et al. 2006. Structural insights into histone demethylation by JMJD2 family members. Cell 125: 691-702.
6. Christensen J, Agger K, Cloos PAC, Pasini D, Rose S, Sennels L, Rappsilber J, Hansen KH, Salcini AE, Helin K. 2007. RBP2 belongs to a family of demethylases, specific for tri-and dimethylated lysine 4 on histone 3. Cell 128: 1063-1076. (Pubitemid 46427869)
7. De Santa F, Totaro MG, Prosperini E, Notarbartolo S, Testa G, Natoli G. 2007. The histone H3 lysine-27 demethylase Jmjd3 links inflammation to inhibition of polycomb-mediated gene silencing. Cell 130: 1083-1094. (Pubitemid 47410272)
8. Ebbs ML, Bender J. 2006. Locus-specific control of DNA methylation by the Arabidopsis SUVH5 histone methyltransferase. Plant Cell 18: 1166-1176. (Pubitemid 43956123)
9. Ebbs ML, Bartee L, Bender J. 2005. H3 lysine 9 methylation is maintained on a transcribed inverted repeat by combined action of SUVH6 and SUVH4 methyltransferases. Mol Cell Biol 25: 10507-10515.
10. Finn RD, Mistry J, Schuster-Bockler B, Griffiths-Jones S, Hollich V, Lassmann T, Moxon S, Marshall M, Khanna A, Durbin R, et al. 2006. Pfam: Clans, Web tools and services. Nucleic Acids Res 34: 247-251.
11. Hamilton AJ, Voinnet O, Chappell L, Baulcombe DC. 2002. Two classes of short interfering RNA in RNA silencing. EMBO J 21: 4671-4679. (Pubitemid 34984354)
12. Herr AJ. 2005. Pathways through the small RNA world of plants. FEBS Lett 579: 5879-5888.
13. Herr AJ, Jensen MB, Dalmay T, Baulcombe D. 2005. RNA polymerase IV directs silencing of endogenous DNA. Science 308: 118-120. (Pubitemid 40471011)
14. Hong SH, Cho YW, Yu LR, Yu H, Veenstra TD, Ge K. 2007. Identification of JmjC domain-containing UTX and JMJD3 as histone H3 lysine 27 demethylases. Proc Natl Acad Sci 104: 18439-18444.
15. Huang L, Jones AM, Searle I, Patel K, Vogler H, Hubner NC, Baulcombe DC. 2009. An atypical RNA polymerase involved in RNA silencing shares small subunits with RNA polymerase II. Nat Struct Mol Biol 16: 91-93.
16. Huettel B, Kanno T, Daxinger L, Aufsatz W, Matzke AJM, Matzke M. 2006. Endogenous targets of RNA-directed DNA methylation and Pol IV in Arabidopsis. EMBO J 25: 2828-2836.
17. Iwase S, Lan F, Bayliss P, de la Torre-Ubieta L, Huarte M, Qi HH, Whetstine JR, Bonni A, Roberts TM, Shi Y. 2007. The X-linked mental retardation gene SMCX.JARID1C defines a family of histone H3 lysine 4 demethylases. Cell 128: 1077-1088. (Pubitemid 46437259)
18. Jackson JP, Lindroth AM, Cao XF, Jacobsen SE. 2002. Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase. Nature 416: 556-560.
19. Jeong JH, Song HR, Ko JH, Jeong YM, Kwon YE, Seol JH, Amasino RM, Noh B, Noh YS. 2009. Repression of FLOWERING LOCUS T chromatin by functionally redundant histone H3 lysine 4 demethylases in Arabidopsis. PLoS One 4: 379-384.
20. Johnson LM, Bostick M, Zhang X, Kraft E, Henderson I, Callis J, Jacobsen SE. 2007. The SRA methyl-cytosine-binding domain links DNA and histone methylation. Curr Biol 17: 379-384.
21. Kanno T, Aufsatz W, Jaligot E, Mette MF,Matzke M,Matzke AJ. 2005a. A SNF2-like protein facilitates dynamic control of DNA methylation. EMBO Rep 6: 649-655.
22. Kanno T, Huettel B, Mette MF, Aufsatz W, Jaligot E, Daxinger L, Kreil DP, Matzke M, Matzke AJ. 2005b. Atypical RNA polymerase subunits required for RNA-directed DNA methylation. Nat Genet 37: 761-765. (Pubitemid 41754895)
23. Klose RJ, Kallin EM, Zhang Y. 2006. JmjC-domain-containing proteins and histone demethylation. Nat Rev Genet 7: 715-727.
24. Lahmy S, Pontier D, Cavel E, Vega D, El-Shami M, Kanno T, Lagrange T. 2009. PolV(PolIVb) function in RNA-directed DNA methylation requires the conserved active site and an additional plant-specific subunit. Proc Natl Acad Sci 106: 941-946.
25. Lan F, Bayliss PE, Rinn JL, Whetstine JR, Wang JK, Chen SZ, Iwase S, Alpatov R, Issaeva I, Canaani E, et al. 2007. A histone H3 lysine 27 demethylase regulates animal posterior development. Nature 449: 689-694.
26. Lee MG, Norman J, Shilatifard A, Shiekhattar R. 2007. Physical and functional association of a trimethyl H3K4 demethylase and Ring6a/ MBLR, a polycomb-like protein. Cell 128: 877-887. (Pubitemid 46341414)
27. Li CF, Pontes O, El-Shami M, Henderson IR, Bernatavichute YV, Chan SWL, Lagrange T, Pikaard C, Jacobsen SE. 2006. An ARGONAUTE4- containing nuclear processing center colocalized with cajal bodies in Arabidopsis thaliana. Cell 126: 93-106.
28. Lindroth AM, Shultis D, Jasencakova Z, Fuchs J, Johnson L, Schubert D, Patnaik D, Pradhan S, Goodrich J, Schubert I, et al. 2004. Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMETHYLASE3. EMBO J 23: 4146-4155.
29. Lu F, Li G, Cui X, Liu C, Wang XJ, Cao X. 2008. Comparative analysis of JmjC domain-containing proteins reveals the potential histone demethylases in Arabidopsis and rice. J Integr Plant Biol 50: 886-896.
30. Lu F, Cui X, Zhang S, Liu C, Cao X. 2010. JMJ14 is an H3K4 demethylase regulating flowering time in Arabidopsis. Cell Res 20: 387-390.
31. Noh B, Lee SH, Kim HJ, Yi G, Shin EA, Lee M, Jung KJ, Doyle MR, Amasino RM, Noh YS. 2004. Divergent roles of a pair of homologous jumonji/zinc-finger- class transcription factor proteins in the regulation of Arabidopsis flowering time. Plant Cell 16: 2601-2613. (Pubitemid 41071349)
32. Pagnussat GC, Yu HJ, Ngo QA, Rajani S, Mayalagu S, Johnson CS, Capron A, Xie LF, Ye D, Sundaresan V. 2005. Genetic and molecular identification of genes required for female gametophyte development and function in Arabidopsis. Development 132: 603-614. (Pubitemid 40277699)
33. Palauqui JC, Elmayan T, Pollien JM, Vaucheret H. 1997. Systemic acquired silencing: Transgene-specific post-transcriptional silencing is transmitted by grafting from silenced stocks to non-silenced scions. EMBO J 16: 4738-4745.
34. Pontes O, Li CF, Nunes PC, Haag JR, Ream T, Vitins A, Jacobsen SE, Pikaard CS. 2006. The Arabidopsis chromatin-modifying nuclear siRNA pathway involves a nucleolar RNA processing center. Cell 126: 79-92.
35. Quesada V, Macknight R, Dean C, Simpson GG. 2003. Autoregulation of FCA pre-mRNA processing controls Arabidopsis flowering time. EMBO J 22: 3142-3152.
36. Saze H, Shiraishi A, Miura A, Kakutani T. 2008. Control of genic DNA methylation by a jmjC domain-containing protein in Arabidopsis thaliana. Science 319: 462-465.
37. Seward DJ, Cubberley G, Kim S, Schonewald M, Zhang L, Tripet B, Bentley DL. 2007. Demethylation of trimethylated histone H3 Lys4 in vivo by JARID1 JmjC proteins. Nat Struct Mol Biol 14: 240-242.
38. Shi YJ, Lan F, Matson C, Mulligan P, Whetstine JR, Cole PA, Casero RA, Shi Y. 2004. Histone demethylation mediated by the nuclear arnine oxidase homolog LSD1. Cell 119: 941-953.
39. Smith LM, Pontes O, Searle I, Yelina NE, Yousafzai FK, Herr AJ, Pikaard C, Baulcombe D. 2007. A novel SNF2 protein associated with nuclear RNA silencing and spread of a silencing signal between cells in Arabidopsis. Plant Cell 19: 1507-1521.
40. Voinnet O, Baulcombe DC. 1997. Systemic signalling in gene silencing. Nature 389: 553.
41. Voinnet O, Vain P, Angell S, Baulcombe DC. 1998. Systemic spread of sequence-specific transgene RNA degradation is initiated by localized introduction of ectopic promoterless DNA. Cell 95: 177-187.
42. Yang W, Jiang D, Jiang J, He Y. 2010. A plant-specific histone H3 lysine 4 demethylase represses the floral transition in Arabidopsis. Plant J. doi: 10.1111/j.1365-313X.2010.04182.x.